-
Notifications
You must be signed in to change notification settings - Fork 27
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Add signifance testing to RDA/CCA #381
Conversation
Based on vegan::betadisper documentation, ANOVA or PERMANOVA are usual tests for betadisper results. Also, TukeyHSD can be performed. I think multiple choices for test can be quite overwhelming for ordinary user, and we should stick to certain test. Now PERMANOVA is the default choice, but there are options for ANOVA and TukeyHSD also. The test choice can be stated with I think the most usual case for results is that user wants only the summary table and not the |
Sounds good. Examples could be added to show both cases. Those who need more capabilities can always proceed to using base functions in whatever way they prefer. Part of the automation is to standardize certain choices as defaults. |
Related to the issue #358
SIgnificance is tested with anova.cca. Also the homogeneity of groups is tested (betadisper + anova)
Additionally a bug was fixed (line 243 and 343). If the output is subsetted in RDA/CCA, the result is now MAE with original and subsetted data. The altExp does not work when the samples differ.